Citrus Sinensis ID: 047357

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------22
MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDAHEELLESGKADPNVVSGEQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH
ccHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
cHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
MSEVFEGYERQYCELstnlsrkcssasllpdgdqkkekYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDAHEELLEsgkadpnvvsgeQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSrnklhgvddAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH
MSEVFEGYERQYCELstnlsrkcssasllpdgdqkkEKYSEIQSGLDDADALIRKMDLearslqpnvKAMLLAKLREYKSDLNKLKRefkrvsssdaheellesgkadpnvvsgEQRERLAMsverinqsgeriresrrVMLETEELGISIVEDLNQQRETLLNsrnklhgvddaiskskKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH
MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDAHEELLESGKADPNVVSGEQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAISKSKKVLSSMSRRMTRNKWIVGSiivalviaiifilfYKLSHH
*********************************************************************MLLAK*************************************************************************GISIV**************************************TRNKWIVGSIIVALVIAIIFILFYKL***
MSEVFEGYERQYCELSTN*************************SGLDDADALIR********************LREYKSDLNKLKREFKR***************************************************ETEELGISIVEDL*****************DDAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH
********ERQYCELSTNLSRKCSSASL***************SGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKSDLNKLKREF**************SGKADPNVVSGEQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH
*SEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSS*AH*ELLES*******VSGEQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSH*
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MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVxxxxxxxxxxxxxxxxxxxxxxxxxxxxDAHEELLESGKADPNVVSGEQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query219 2.2.26 [Sep-21-2011]
Q9SEL5222 Vesicle transport v-SNARE yes no 0.995 0.981 0.743 6e-92
Q9LVP9221 Vesicle transport v-SNARE no no 0.986 0.977 0.583 6e-72
Q9SEL6221 Vesicle transport v-SNARE no no 0.986 0.977 0.588 4e-65
O89116217 Vesicle transport through yes no 0.977 0.986 0.306 1e-25
Q96AJ9217 Vesicle transport through yes no 0.977 0.986 0.301 3e-25
Q9JI51224 Vesicle transport through yes no 0.990 0.968 0.311 1e-24
O88384232 Vesicle transport through no no 0.831 0.784 0.267 2e-15
P58200232 Vesicle transport through no no 0.831 0.784 0.267 6e-15
Q2KIU0232 Vesicle transport through yes no 0.794 0.75 0.29 1e-13
Q54CK6217 Vesicle transport through yes no 0.853 0.861 0.263 2e-13
>sp|Q9SEL5|VTI12_ARATH Vesicle transport v-SNARE 12 OS=Arabidopsis thaliana GN=VTI12 PE=1 SV=3 Back     alignment and function desciption
 Score =  336 bits (862), Expect = 6e-92,   Method: Compositional matrix adjust.
 Identities = 165/222 (74%), Positives = 199/222 (89%), Gaps = 4/222 (1%)

Query: 1   MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEA 60
           MS+VFEGYERQYCELSTNLSRKC SAS+L +G++KK K +EI+SG+D+AD LIRKMDLEA
Sbjct: 1   MSDVFEGYERQYCELSTNLSRKCHSASVLSNGEEKKGKIAEIKSGIDEADVLIRKMDLEA 60

Query: 61  RSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDA----HEELLESGKADPNVVSGEQ 116
           RSLQP+ KA+ L+KLREYKSDLN+LK+EFKRVSS+DA     EEL+ESG AD + VS +Q
Sbjct: 61  RSLQPSAKAVCLSKLREYKSDLNQLKKEFKRVSSADAKPSSREELMESGMADLHAVSADQ 120

Query: 117 RERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAI 176
           R RLAMSVER++QS +RIRESRR+MLETEE+GISIV+DL+QQR+TLL++ NKLHGVDDAI
Sbjct: 121 RGRLAMSVERLDQSSDRIRESRRLMLETEEVGISIVQDLSQQRQTLLHAHNKLHGVDDAI 180

Query: 177 SKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSH 218
            KSKKVL++MSRRMTRNKWI+ S+IVALV+AII I+ YKLSH
Sbjct: 181 DKSKKVLTAMSRRMTRNKWIITSVIVALVLAIILIISYKLSH 222
May function as a v-SNARE responsible for the docking or fusion of transport vesicles within the trans-Golgi network (TGN). May be also involved in retrograde traffic to the cis-Golgi.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9LVP9|VTI13_ARATH Vesicle transport v-SNARE 13 OS=Arabidopsis thaliana GN=VTI13 PE=2 SV=1 Back     alignment and function description
>sp|Q9SEL6|VTI11_ARATH Vesicle transport v-SNARE 11 OS=Arabidopsis thaliana GN=VTI11 PE=1 SV=2 Back     alignment and function description
>sp|O89116|VTI1A_MOUSE Vesicle transport through interaction with t-SNAREs homolog 1A OS=Mus musculus GN=Vti1a PE=1 SV=1 Back     alignment and function description
>sp|Q96AJ9|VTI1A_HUMAN Vesicle transport through interaction with t-SNAREs homolog 1A OS=Homo sapiens GN=VTI1A PE=1 SV=2 Back     alignment and function description
>sp|Q9JI51|VTI1A_RAT Vesicle transport through interaction with t-SNAREs homolog 1A OS=Rattus norvegicus GN=Vti1a PE=1 SV=1 Back     alignment and function description
>sp|O88384|VTI1B_MOUSE Vesicle transport through interaction with t-SNAREs homolog 1B OS=Mus musculus GN=Vti1b PE=1 SV=1 Back     alignment and function description
>sp|P58200|VTI1B_RAT Vesicle transport through interaction with t-SNAREs homolog 1B OS=Rattus norvegicus GN=Vti1b PE=1 SV=2 Back     alignment and function description
>sp|Q2KIU0|VTI1B_BOVIN Vesicle transport through interaction with t-SNAREs homolog 1B OS=Bos taurus GN=VTI1B PE=2 SV=1 Back     alignment and function description
>sp|Q54CK6|VTI1A_DICDI Vesicle transport through interaction with t-SNAREs homolog 1A OS=Dictyostelium discoideum GN=vti1A PE=1 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query219
224108956223 predicted protein [Populus trichocarpa] 1.0 0.982 0.766 8e-96
18396008222 vesicle transport v-SNARE 12 [Arabidopsi 0.995 0.981 0.743 3e-90
6690276222 v-SNARE AtVTI1b [Arabidopsis thaliana] 0.995 0.981 0.738 7e-90
255562958217 vesicle transport V-snare protein vti1a, 0.986 0.995 0.740 2e-89
351724499222 uncharacterized protein LOC100500007 [Gl 0.995 0.981 0.729 7e-89
357487249222 Vesicle transport v-SNARE [Medicago trun 0.995 0.981 0.711 3e-88
351725521222 uncharacterized protein LOC100527319 [Gl 0.990 0.977 0.728 5e-88
388523045222 unknown [Medicago truncatula] 0.995 0.981 0.707 2e-87
225457347221 PREDICTED: vesicle transport v-SNARE 13 0.990 0.981 0.702 3e-87
297733941279 unnamed protein product [Vitis vinifera] 0.990 0.777 0.702 3e-86
>gi|224108956|ref|XP_002315029.1| predicted protein [Populus trichocarpa] gi|222864069|gb|EEF01200.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  355 bits (911), Expect = 8e-96,   Method: Compositional matrix adjust.
 Identities = 171/223 (76%), Positives = 198/223 (88%), Gaps = 4/223 (1%)

Query: 1   MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEA 60
           MSEVFEGYERQYCELS NLSRKC+S SLLPDG +K  K +EI+SGLDD D LIRKMDLEA
Sbjct: 1   MSEVFEGYERQYCELSANLSRKCNSTSLLPDGVEKNAKVNEIKSGLDDCDVLIRKMDLEA 60

Query: 61  RSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDAHE----ELLESGKADPNVVSGEQ 116
           RSLQPNVKAMLLAKLREYKSDLNKLKREFKR++S D ++    ELLE+G AD + VS +Q
Sbjct: 61  RSLQPNVKAMLLAKLREYKSDLNKLKREFKRITSGDVNQASRVELLEAGMADVHSVSADQ 120

Query: 117 RERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAI 176
           RER+ MSVER+NQSG+RI+ESRR MLETEELG+SI+EDL+QQR+TLL++ NKLHGVDDAI
Sbjct: 121 RERMTMSVERLNQSGDRIKESRRTMLETEELGVSILEDLHQQRQTLLHAHNKLHGVDDAI 180

Query: 177 SKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLSHH 219
            KSKKVL+SM RRMTRNKWIVGS+I ALV+AIIFI+ +K+SHH
Sbjct: 181 DKSKKVLTSMLRRMTRNKWIVGSVIAALVVAIIFIILFKISHH 223

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|18396008|ref|NP_564255.1| vesicle transport v-SNARE 12 [Arabidopsis thaliana] gi|83305646|sp|Q9SEL5.3|VTI12_ARATH RecName: Full=Vesicle transport v-SNARE 12; Short=AtVTI12; AltName: Full=Vesicle soluble NSF attachment protein receptor VTI1b; Short=AtVTI1b; AltName: Full=Vesicle transport v-SNARE protein VTI1b gi|9295720|gb|AAF87026.1|AC006535_4 T24P13.5 [Arabidopsis thaliana] gi|332192598|gb|AEE30719.1| vesicle transport v-SNARE 12 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|6690276|gb|AAF24062.1|AF114751_1 v-SNARE AtVTI1b [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|255562958|ref|XP_002522484.1| vesicle transport V-snare protein vti1a, putative [Ricinus communis] gi|223538369|gb|EEF39976.1| vesicle transport V-snare protein vti1a, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|351724499|ref|NP_001235524.1| uncharacterized protein LOC100500007 [Glycine max] gi|255628471|gb|ACU14580.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|357487249|ref|XP_003613912.1| Vesicle transport v-SNARE [Medicago truncatula] gi|355515247|gb|AES96870.1| Vesicle transport v-SNARE [Medicago truncatula] Back     alignment and taxonomy information
>gi|351725521|ref|NP_001238119.1| uncharacterized protein LOC100527319 [Glycine max] gi|255632079|gb|ACU16392.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|388523045|gb|AFK49584.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|225457347|ref|XP_002284602.1| PREDICTED: vesicle transport v-SNARE 13 [Vitis vinifera] Back     alignment and taxonomy information
>gi|297733941|emb|CBI15188.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query219
TAIR|locus:2200595222 VTI1B [Arabidopsis thaliana (t 0.995 0.981 0.702 5.5e-77
TAIR|locus:2175733221 SGR4 "SHOOT GRAVITROPSIM 4" [A 0.986 0.977 0.552 4.3e-61
TAIR|locus:2094662195 VTI13 "vesicle transport V-sna 0.753 0.846 0.508 2.8e-41
TAIR|locus:2164830207 AT5G39630 [Arabidopsis thalian 0.826 0.874 0.468 4.9e-37
RGD|621490224 Vti1a "vesicle transport throu 0.881 0.861 0.325 4.5e-27
UNIPROTKB|J9NRK3217 VTI1A "Uncharacterized protein 0.872 0.880 0.328 1.5e-26
MGI|MGI:1855699217 Vti1a "vesicle transport throu 0.858 0.866 0.323 1.5e-26
UNIPROTKB|Q96AJ9217 VTI1A "Vesicle transport throu 0.858 0.866 0.323 2.5e-26
UNIPROTKB|E1BYU6187 VTI1A "Uncharacterized protein 0.835 0.978 0.316 6.8e-24
ASPGD|ASPL0000044157224 AN1973 [Emericella nidulans (t 0.876 0.857 0.316 1.8e-23
TAIR|locus:2200595 VTI1B [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 775 (277.9 bits), Expect = 5.5e-77, P = 5.5e-77
 Identities = 156/222 (70%), Positives = 187/222 (84%)

Query:     1 MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEA 60
             MS+VFEGYERQYCELSTNLSRKC SAS+L +G++KK K +EI+SG+D+AD LIRKMDLEA
Sbjct:     1 MSDVFEGYERQYCELSTNLSRKCHSASVLSNGEEKKGKIAEIKSGIDEADVLIRKMDLEA 60

Query:    61 RSLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDA----HEELLESGKADPNVVSGEQ 116
             RSLQP+ KA+ L+KLREYKSDLN+LK+EFKRVSS+DA     EEL+ESG AD + VS +Q
Sbjct:    61 RSLQPSAKAVCLSKLREYKSDLNQLKKEFKRVSSADAKPSSREELMESGMADLHAVSADQ 120

Query:   117 RERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLNQQRETLLNSRNKLHGVDDAI 176
             R RLAMSVER++QS +RIRESRR+MLETEE+GISIV+DL+QQR+TLL++ NKLHGVDDAI
Sbjct:   121 RGRLAMSVERLDQSSDRIRESRRLMLETEEVGISIVQDLSQQRQTLLHAHNKLHGVDDAI 180

Query:   177 SKSKKVLSSMSRRMTRNKWIVGSXXXXXXXXXXXXXXYKLSH 218
              KSKKVL++MSRRMTRNKWI+ S              YKLSH
Sbjct:   181 DKSKKVLTAMSRRMTRNKWIITSVIVALVLAIILIISYKLSH 222
GO:0005634 "nucleus" evidence=ISM
GO:0006886 "intracellular protein transport" evidence=IEA
GO:0006944 "cellular membrane fusion" evidence=RCA;IPI
GO:0000149 "SNARE binding" evidence=TAS
GO:0004872 "receptor activity" evidence=TAS
GO:0005770 "late endosome" evidence=TAS
GO:0005802 "trans-Golgi network" evidence=IDA;TAS
GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA;TAS
GO:0005483 "soluble NSF attachment protein activity" evidence=TAS
GO:0005886 "plasma membrane" evidence=IDA
GO:0046907 "intracellular transport" evidence=TAS
GO:0005515 "protein binding" evidence=IPI
GO:0006623 "protein targeting to vacuole" evidence=RCA;IMP
GO:0000902 "cell morphogenesis" evidence=RCA
GO:0006869 "lipid transport" evidence=RCA
GO:0010351 "lithium ion transport" evidence=RCA
GO:0016049 "cell growth" evidence=RCA
GO:0016192 "vesicle-mediated transport" evidence=RCA
GO:0016197 "endosomal transport" evidence=RCA
GO:0016558 "protein import into peroxisome matrix" evidence=RCA
GO:0048193 "Golgi vesicle transport" evidence=RCA
GO:0005768 "endosome" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=IDA
TAIR|locus:2175733 SGR4 "SHOOT GRAVITROPSIM 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2094662 VTI13 "vesicle transport V-snare 13" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2164830 AT5G39630 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
RGD|621490 Vti1a "vesicle transport through interaction with t-SNAREs 1A" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|J9NRK3 VTI1A "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:1855699 Vti1a "vesicle transport through interaction with t-SNAREs 1A" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q96AJ9 VTI1A "Vesicle transport through interaction with t-SNAREs homolog 1A" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E1BYU6 VTI1A "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ASPGD|ASPL0000044157 AN1973 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9JI51VTI1A_RATNo assigned EC number0.31110.99080.9687yesno
Q9SEL5VTI12_ARATHNo assigned EC number0.74320.99540.9819yesno
O89116VTI1A_MOUSENo assigned EC number0.30630.97710.9861yesno
Q96AJ9VTI1A_HUMANNo assigned EC number0.30180.97710.9861yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query219
pfam0500879 pfam05008, V-SNARE, Vesicle transport v-SNARE prot 1e-22
pfam1235266 pfam12352, V-SNARE_C, Snare region anchored in the 8e-17
pfam0390892 pfam03908, Sec20, Sec20 0.003
>gnl|CDD|203149 pfam05008, V-SNARE, Vesicle transport v-SNARE protein N-terminus Back     alignment and domain information 
 Score = 87.3 bits (217), Expect = 1e-22
 Identities = 35/80 (43%), Positives = 52/80 (65%), Gaps = 1/80 (1%)

Query: 12 YCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAML 71
          + EL   + RK +    L  G+++K    EI+  LD+A+ L+ +M+LE R+L  + +A  
Sbjct: 1  FKELLAEIKRKLARIPKLS-GEERKAALREIERKLDEAEELLDQMELEVRNLPSSERAKY 59

Query: 72 LAKLREYKSDLNKLKREFKR 91
           AKLREYKS+L+KLKRE KR
Sbjct: 60 NAKLREYKSELDKLKRELKR 79

V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this. This domain is the N-terminal half of the V-Snare proteins. Length = 79
>gnl|CDD|152787 pfam12352, V-SNARE_C, Snare region anchored in the vesicle membrane C-terminus Back     alignment and domain information
>gnl|CDD|112708 pfam03908, Sec20, Sec20 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 219
KOG1666220 consensus V-SNARE [Intracellular trafficking, secr 100.0
KOG3251213 consensus Golgi SNAP receptor complex member [Intr 99.91
KOG3208231 consensus SNARE protein GS28 [Intracellular traffi 99.9
PF0500879 V-SNARE: Vesicle transport v-SNARE protein N-termi 99.59
PF1235266 V-SNARE_C: Snare region anchored in the vesicle me 99.54
PF0390892 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membr 99.41
KOG3202235 consensus SNARE protein TLG1/Syntaxin 6 [Intracell 98.9
KOG0812311 consensus SNARE protein SED5/Syntaxin 5 [Intracell 98.55
PF09753251 Use1: Membrane fusion protein Use1; InterPro: IPR0 98.42
KOG0809305 consensus SNARE protein TLG2/Syntaxin 16 [Intracel 98.29
KOG0810297 consensus SNARE protein Syntaxin 1 and related pro 97.98
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 97.96
COG5325283 t-SNARE complex subunit, syntaxin [Intracellular t 97.7
COG5074280 t-SNARE complex subunit, syntaxin [Intracellular t 97.44
KOG3385118 consensus V-SNARE [Intracellular trafficking, secr 97.27
smart0039766 t_SNARE Helical region found in SNAREs. All alpha- 97.25
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 97.24
KOG2678244 consensus Predicted membrane protein [Function unk 97.22
KOG3065 273 consensus SNAP-25 (synaptosome-associated protein) 97.1
KOG0811269 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Synt 97.0
KOG3894316 consensus SNARE protein Syntaxin 18/UFE1 [Intracel 96.94
PF0573963 SNARE: SNARE domain; InterPro: IPR000727 The proce 96.77
PF0421070 MtrG: Tetrahydromethanopterin S-methyltransferase, 96.16
cd0019360 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fu 95.84
KOG1666220 consensus V-SNARE [Intracellular trafficking, secr 95.81
COG406475 MtrG Tetrahydromethanopterin S-methyltransferase, 95.79
PRK0102677 tetrahydromethanopterin S-methyltransferase subuni 95.67
TIGR0114970 mtrG N5-methyltetrahydromethanopterin:coenzyme M m 95.63
PRK10884206 SH3 domain-containing protein; Provisional 95.11
KOG0860116 consensus Synaptobrevin/VAMP-like protein [Intrace 93.93
PF0095789 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 93.76
PF06160 560 EzrA: Septation ring formation regulator, EzrA ; I 93.6
PF06008264 Laminin_I: Laminin Domain I; InterPro: IPR009254 L 92.31
PF0988959 DUF2116: Uncharacterized protein containing a Zn-r 92.22
KOG3065273 consensus SNAP-25 (synaptosome-associated protein) 90.44
KOG0859217 consensus Synaptobrevin/VAMP-like protein [Intrace 90.11
PF1291156 OppC_N: N-terminal TM domain of oligopeptide trans 89.28
TIGR0129452 P_lamban phospholamban. This model represents the 88.85
PF0427252 Phospholamban: Phospholamban; InterPro: IPR005984 87.45
PF08702146 Fib_alpha: Fibrinogen alpha/beta chain family; Int 87.17
KOG0862216 consensus Synaptobrevin/VAMP-like protein SEC22 [I 87.12
PF07106169 TBPIP: Tat binding protein 1(TBP-1)-interacting pr 86.83
PF0988959 DUF2116: Uncharacterized protein containing a Zn-r 86.73
PF1077971 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly 86.16
KOG09941758 consensus Extracellular matrix glycoprotein Lamini 84.62
PF12128 1201 DUF3584: Protein of unknown function (DUF3584); In 84.58
PHA03240258 envelope glycoprotein M; Provisional 83.77
PHA0265081 hypothetical protein; Provisional 82.33
PF06024101 DUF912: Nucleopolyhedrovirus protein of unknown fu 81.66
PF05478 806 Prominin: Prominin; InterPro: IPR008795 The promin 81.3
COG3883265 Uncharacterized protein conserved in bacteria [Fun 81.17
PF00523 490 Fusion_gly: Fusion glycoprotein F0; InterPro: IPR0 80.9
PF1235266 V-SNARE_C: Snare region anchored in the vesicle me 80.79
PF1266958 P12: Virus attachment protein p12 family 80.69
PF1518885 CCDC-167: Coiled-coil domain-containing protein 16 80.23
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information 
Probab=100.00  E-value=4.8e-49  Score=303.79  Aligned_cols=216  Identities=48%  Similarity=0.762  Sum_probs=205.0

Q ss_pred             CchhHHHHHHHHHHHHHHHHHhhhhhcCCCChhHHHHHHHHHHchHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHH
Q 047357            1 MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKS   80 (219)
Q Consensus         1 Ms~~f~~ye~e~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~m~~E~~~~~~~~r~~~~~k~~~~~~   80 (219)
                      ||+.|++||++|+.+..+|..+++.+++. ++++++..+++++..+++|++++++|++|++.+||+.|..|..|++.|++
T Consensus         1 ms~~fe~yEqqy~~l~a~it~k~~~~~~~-~~~ekk~~l~~i~~~leEa~ell~qMdlEvr~lp~~~Rs~~~~KlR~yks   79 (220)
T KOG1666|consen    1 MSSLFEGYEQQYRELSAEITKKIGRALSL-PGSEKKQLLSEIDSKLEEANELLDQMDLEVRELPPNFRSSYLSKLREYKS   79 (220)
T ss_pred             CchHHHHHHHHHHHHHHHHHHhHHHHhcC-CchHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCchhhhHHHHHHHHHHH
Confidence            89999999999999999999999999999 68999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcch----hhHhhhccCCCCCCCCCCHHHHHHHHhhHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 047357           81 DLNKLKREFKRVSSS----DAHEELLESGKADPNVVSGEQRERLAMSVERINQSGERIRESRRVMLETEELGISIVEDLN  156 (219)
Q Consensus        81 ~l~~l~~~~~~~~~~----~~r~~L~~~~~~~~~~~~~~~r~~l~~~~~~l~~~~~~L~~s~~~~~ete~~g~~i~~~L~  156 (219)
                      +++.+++++++....    .+|+++++....+....+.+||++|+++++.+.+++++|.+++|++.|||+||.+|+++|+
T Consensus        80 dl~~l~~e~k~~~~~~~~~~~rde~~~~~~add~~~~~dQR~rLl~nTerLeRst~rl~ds~Ria~ETEqIG~~IL~dL~  159 (220)
T KOG1666|consen   80 DLKKLKRELKRTTSRNLNAGDRDELLEALEADDQNISADQRARLLQNTERLERSTDRLKDSQRIALETEQIGSEILEDLH  159 (220)
T ss_pred             HHHHHHHHHHHhhccccccchHHHHHhhhhccccccchhHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999988732    2788888775444444578999999999999999999999999999999999999999999


Q ss_pred             HhhHHHHHhhhhhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 047357          157 QQRETLLNSRNKLHGVDDAISKSKKVLSSMSRRMTRNKWIVGSIIVALVIAIIFILFYKLS  217 (219)
Q Consensus       157 ~Qre~L~~~~~~~~~i~~~l~~s~~~l~~m~rr~~~dk~Il~~ii~~l~~~i~~vi~~k~~  217 (219)
                      .||++|++++..+.+++++|++|+++++.|.||+.+|||++++||++++++|++++|+||+
T Consensus       160 ~QRe~L~rar~rL~~td~~lgkS~kiL~tM~RR~~~nk~~~~aii~~l~~~il~ilY~kf~  220 (220)
T KOG1666|consen  160 GQREQLERARERLRETDANLGKSRKILTTMTRRLIRNKFTLTAIIALLVLAILLILYSKFT  220 (220)
T ss_pred             HHHHHHHHHHHHHHhchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999999999985

>KOG3251 consensus Golgi SNAP receptor complex member [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles Back     alignment and domain information
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C Back     alignment and domain information
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway Back     alignment and domain information
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport Back     alignment and domain information
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis Back     alignment and domain information
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion] Back     alignment and domain information
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion] Back     alignment and domain information
>KOG3385 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>smart00397 t_SNARE Helical region found in SNAREs Back     alignment and domain information
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG2678 consensus Predicted membrane protein [Function unknown] Back     alignment and domain information
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG3894 consensus SNARE protein Syntaxin 18/UFE1 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ] Back     alignment and domain information
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea Back     alignment and domain information
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent Back     alignment and domain information
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism] Back     alignment and domain information
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional Back     alignment and domain information
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G Back     alignment and domain information
>PRK10884 SH3 domain-containing protein; Provisional Back     alignment and domain information
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis Back     alignment and domain information
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site Back     alignment and domain information
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells Back     alignment and domain information
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown Back     alignment and domain information
>KOG3065 consensus SNAP-25 (synaptosome-associated protein) component of SNARE complex [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>KOG0859 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C Back     alignment and domain information
>TIGR01294 P_lamban phospholamban Back     alignment and domain information
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium Back     alignment and domain information
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation Back     alignment and domain information
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences Back     alignment and domain information
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown Back     alignment and domain information
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [] Back     alignment and domain information
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures] Back     alignment and domain information
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins Back     alignment and domain information
>PHA03240 envelope glycoprotein M; Provisional Back     alignment and domain information
>PHA02650 hypothetical protein; Provisional Back     alignment and domain information
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins Back     alignment and domain information
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology Back     alignment and domain information
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF00523 Fusion_gly: Fusion glycoprotein F0; InterPro: IPR000776 The fusion glycoproteins from this family are found in ssRNA negative-strand viruses Back     alignment and domain information
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C Back     alignment and domain information
>PF12669 P12: Virus attachment protein p12 family Back     alignment and domain information
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167 Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query219
1vcs_A102 Solution Structure Of Rsgi Ruh-009, An N-Terminal D 1e-08
1gl2_C65 Crystal Structure Of An Endosomal Snare Core Comple 3e-06
2nps_C81 Crystal Structure Of The Early Endosomal Snare Comp 1e-05
>pdb|1VCS|A Chain A, Solution Structure Of Rsgi Ruh-009, An N-Terminal Domain Of Vti1a [mus Musculus] Length = 102 Back     alignment and structure 
Iteration: 1

 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 8  YERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNV 67
          YE+ +  L+  ++ K +    LP  D+KK+  + ++  L++A  L+ +MDLE R + P  
Sbjct: 10 YEQDFAVLTAEITSKIARVPRLPP-DEKKQMVANVEKQLEEARELLEQMDLEVREIPPQS 68
Query: 68 KAMLLAKLREYKSDLNKLKREFKR 91
          + M   ++R YK ++ KL+ +FKR
Sbjct: 69 RGMYSNRMRSYKQEMGKLETDFKR 92
>pdb|1GL2|C Chain C, Crystal Structure Of An Endosomal Snare Core Complex Length = 65 Back     alignment and structure
>pdb|2NPS|C Chain C, Crystal Structure Of The Early Endosomal Snare Complex Length = 81 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query219
1vcs_A102 Vesicle transport through interaction with T- snar 9e-26
2nps_C81 Vesicle transport through interaction with T- snar 1e-25
2qyw_A102 Vesicle transport through interaction with T-SNAR 2e-24
1gl2_C65 VTI1B, vesicle transport V-snare protein VTI1-like 6e-20
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-06
3onj_A97 T-snare VTI1; helix, HABC, protein transport; 1.92 1e-06
>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1 Length = 102 Back     alignment and structure
 Score = 95.4 bits (237), Expect = 9e-26
 Identities = 29/99 (29%), Positives = 53/99 (53%), Gaps = 1/99 (1%)

Query: 2   SEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEAR 61
               EGYE+ +  L+  ++ K +    LP  D+KK+  + ++  L++A  L+ +MDLE R
Sbjct: 4   GSSGEGYEQDFAVLTAEITSKIARVPRLP-PDEKKQMVANVEKQLEEARELLEQMDLEVR 62

Query: 62  SLQPNVKAMLLAKLREYKSDLNKLKREFKRVSSSDAHEE 100
            + P  + M   ++R YK ++ KL+ +FKR   +     
Sbjct: 63  EIPPQSRGMYSNRMRSYKQEMGKLETDFKRSRIASGPSS 101
>2nps_C Vesicle transport through interaction with T- snares homolog 1A; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Rattus norvegicus} Length = 81 Back     alignment and structure
>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V Length = 102 Back     alignment and structure
>1gl2_C VTI1B, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Mus musculus} SCOP: h.1.15.1 Length = 65 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C Length = 97 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query219
2qyw_A102 Vesicle transport through interaction with T-SNAR 99.84
1vcs_A102 Vesicle transport through interaction with T- snar 99.82
3onj_A97 T-snare VTI1; helix, HABC, protein transport; 1.92 99.8
2nps_C81 Vesicle transport through interaction with T- snar 99.79
1gl2_C65 VTI1B, vesicle transport V-snare protein VTI1-like 99.57
1n7s_C79 SNAP-25A; neuronal snare protein complex, four hel 99.28
1nhl_A54 Synaptosomal-associated protein 23; snare, coiled- 99.01
3b5n_C70 Protein transport protein SEC9; snare complex, syn 98.62
1l4a_C83 S-SNAP25 fusion protein; snare, snare complex, mem 98.55
3hd7_B109 Syntaxin-1A; membrane protein, coiled-coil, 4-heli 98.02
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 97.86
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 97.09
2nps_D82 Syntaxin-6; vesicle fusion, snare complex, early e 97.06
1gl2_D65 Syntaxin 8, vesicle transport V-snare protein VTI1 96.98
3b5n_D64 Protein transport protein SEC9; snare complex, syn 96.63
1sfc_D87 Protein (SNAP-25B), protein (synaptobrevin 2); mem 96.61
1n7s_D66 SNAP-25A; neuronal snare protein complex, four hel 96.52
1l4a_D87 S-SNAP25 fusion protein; snare, snare complex, mem 96.17
3hd7_A91 Vesicle-associated membrane protein 2; membrane pr 96.15
1dn1_B267 Syntaxin 1A, syntaxin binding protein 1; protein-p 93.97
2c5k_T95 Syntaxin TLG1, T-snare affecting A late golgi comp 89.76
2xhe_B279 Syntaxin1; exocytosis, exocytosis complex, snare, 89.55
1fjk_A52 Cardiac phospholamban; helix, membrane protein; NM 84.67
3c98_B279 Syntaxin-1A; protein complex, alternative splicing 84.26
1jth_B77 Syntaxin 1A; coiled-coil, polar layer, endocytosis 83.89
3vkg_A 3245 Dynein heavy chain, cytoplasmic; AAA+ protein, mol 82.65
2kog_A119 Vesicle-associated membrane protein 2; synaptobrev 82.37
>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V Back     alignment and structure
Probab=99.84  E-value=1.8e-20  Score=132.13  Aligned_cols=90  Identities=24%  Similarity=0.336  Sum_probs=85.6

Q ss_pred             CchhHHHHHHHHHHHHHHHHHhhhhhcCCCChhHHHHHHHHHHchHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHH
Q 047357            1 MSEVFEGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKS   80 (219)
Q Consensus         1 Ms~~f~~ye~e~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~m~~E~~~~~~~~r~~~~~k~~~~~~   80 (219)
                      ||++|++||++|+.++.+|..+|++++...++++|+..+..++..|++|++++++|++|++++|++.|..|..|++.|+.
T Consensus        13 mSelFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~~i~~ie~~ldEA~eLl~qMelE~r~~p~s~R~~~~~klr~Yk~   92 (102)
T 2qyw_A           13 SSEHFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKKLVRDFDEKQQEANETLAEMEEELRYAPLTFRNPMMSKLRNYRK   92 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            78999999999999999999999999765367999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 047357           81 DLNKLKREFK   90 (219)
Q Consensus        81 ~l~~l~~~~~   90 (219)
                      +++.++++|+
T Consensus        93 dL~~lk~elk  102 (102)
T 2qyw_A           93 DLAKLHREVR  102 (102)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHhhcC
Confidence            9999999874
>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1 Back     alignment and structure
>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C Back     alignment and structure
>2nps_C Vesicle transport through interaction with T- snares homolog 1A; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Rattus norvegicus} Back     alignment and structure
>1gl2_C VTI1B, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Mus musculus} SCOP: h.1.15.1 Back     alignment and structure
>1n7s_C SNAP-25A; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1sfc_C 1urq_C 3hd7_C* 3hd9_C 3ipd_C 3rk2_C 3rk3_C 3rl0_C 1kil_C 1jth_A Back     alignment and structure
>1nhl_A Synaptosomal-associated protein 23; snare, coiled-coil, protein transport; 2.30A {Homo sapiens} SCOP: h.1.15.1 Back     alignment and structure
>3b5n_C Protein transport protein SEC9; snare complex, syntaxin, synaptobrevin, SNAP-25, SSO1P, SNC1P, SEC9P, SSO1, SNC1, coiled coil; 1.60A {Saccharomyces cerevisiae} SCOP: h.1.15.1 Back     alignment and structure
>1l4a_C S-SNAP25 fusion protein; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Back     alignment and structure
>3hd7_B Syntaxin-1A; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_B 3ipd_B Back     alignment and structure
>3hd7_A Vesicle-associated membrane protein 2; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_A 3ipd_A Back     alignment and structure
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus} Back     alignment and structure
>2nps_D Syntaxin-6; vesicle fusion, snare complex, early endosomal snare complex, VTI1A, VAMP4, transport protein; 2.50A {Homo sapiens} Back     alignment and structure
>1gl2_D Syntaxin 8, vesicle transport V-snare protein VTI1-like 1; membrane protein, membrane fusion protein complex, coiled coil, transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>3b5n_D Protein transport protein SEC9; snare complex, syntaxin, synaptobrevin, SNAP-25, SSO1P, SNC1P, SEC9P, SSO1, SNC1, coiled coil; 1.60A {Saccharomyces cerevisiae} Back     alignment and structure
>1sfc_D Protein (SNAP-25B), protein (synaptobrevin 2); membrane fusion protein complex, transport protein; 2.40A {Rattus norvegicus} SCOP: h.1.15.1 Back     alignment and structure
>1n7s_D SNAP-25A; neuronal snare protein complex, four helix bundle, transport protein; 1.45A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 3rk2_D 3rk3_D 3rl0_D 1kil_D 3hd7_D* 3hd9_D 3ipd_D 1urq_D 1xtg_B Back     alignment and structure
>1l4a_D S-SNAP25 fusion protein; snare, snare complex, membrane fusion, neurotransmission, endocytosis/exocytosis complex; 2.95A {Loligo pealei} SCOP: h.1.15.1 Back     alignment and structure
>3hd7_A Vesicle-associated membrane protein 2; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_A 3ipd_A Back     alignment and structure
>1dn1_B Syntaxin 1A, syntaxin binding protein 1; protein-protein complex, multi-subunit; 2.60A {Rattus norvegicus} PDB: 3c98_B Back     alignment and structure
>2c5k_T Syntaxin TLG1, T-snare affecting A late golgi compartment protein 1; protein transport/complex, snare, VFT complex, protein transport, phosphorylation; 2.05A {Saccharomyces cerevisiae} PDB: 2c5j_A 2c5i_T Back     alignment and structure
>2xhe_B Syntaxin1; exocytosis, exocytosis complex, snare, neuro fusion, SM PROT choanoflagellates; 2.80A {Monosiga brevicollis} Back     alignment and structure
>1fjk_A Cardiac phospholamban; helix, membrane protein; NMR {Sus scrofa} SCOP: j.37.1.1 PDB: 1fjp_A 2kyv_A 1zll_A 2hyn_A 1n7l_A 2kb7_P 1plp_A Back     alignment and structure
>3c98_B Syntaxin-1A; protein complex, alternative splicing, cytoplasm, membrane, phosphoprotein, protein transport, transport, coiled coil; 2.60A {Rattus norvegicus} Back     alignment and structure
>1jth_B Syntaxin 1A; coiled-coil, polar layer, endocytosis-exocytosis complex; 2.00A {Rattus norvegicus} SCOP: h.1.15.1 PDB: 1hvv_A* 1urq_B Back     alignment and structure
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* Back     alignment and structure
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 219
d1vcsa189 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protei 7e-26
>d1vcsa1 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protein Vti1-like 2 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89 Back     information, alignment and structure

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Vesicle transport v-SNARE protein Vti1-like 2
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 94.0 bits (234), Expect = 7e-26
 Identities = 29/87 (33%), Positives = 52/87 (59%), Gaps = 1/87 (1%)

Query: 6  EGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQP 65
          EGYE+ +  L+  ++ K +    LP  D+KK+  + ++  L++A  L+ +MDLE R + P
Sbjct: 1  EGYEQDFAVLTAEITSKIARVPRLP-PDEKKQMVANVEKQLEEARELLEQMDLEVREIPP 59

Query: 66 NVKAMLLAKLREYKSDLNKLKREFKRV 92
            + M   ++R YK ++ KL+ +FKR 
Sbjct: 60 QSRGMYSNRMRSYKQEMGKLETDFKRS 86

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query219
d1vcsa189 Vesicle transport v-SNARE protein Vti1-like 2 {Mou 99.78
>d1vcsa1 a.47.2.1 (A:8-96) Vesicle transport v-SNARE protein Vti1-like 2 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Vesicle transport v-SNARE protein Vti1-like 2
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=2.2e-19  Score=121.37  Aligned_cols=87  Identities=32%  Similarity=0.646  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhcCCCChhHHHHHHHHHHchHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHH
Q 047357            6 EGYERQYCELSTNLSRKCSSASLLPDGDQKKEKYSEIQSGLDDADALIRKMDLEARSLQPNVKAMLLAKLREYKSDLNKL   85 (219)
Q Consensus         6 ~~ye~e~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~m~~E~~~~~~~~r~~~~~k~~~~~~~l~~l   85 (219)
                      ++||++|..+..+|..+|++++.+ +|++|+..+.+++..+++|.+++++|++|++++||+.|..|..+++.|+.+++.+
T Consensus         1 E~YE~~y~~l~a~i~~kl~~i~~~-~geerk~~l~~ie~~leEA~ell~qMelEvr~~p~s~R~~~~~klr~Yk~dl~~l   79 (89)
T d1vcsa1           1 EGYEQDFAVLTAEITSKIARVPRL-PPDEKKQMVANVEKQLEEARELLEQMDLEVREIPPQSRGMYSNRMRSYKQEMGKL   79 (89)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHGGGS-CTTTHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCTTTHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHcC-CchHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHH
Confidence            469999999999999999999998 8999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhc
Q 047357           86 KREFKRVS   93 (219)
Q Consensus        86 ~~~~~~~~   93 (219)
                      +++|++++
T Consensus        80 k~elk~a~   87 (89)
T d1vcsa1          80 ETDFKRSR   87 (89)
T ss_dssp             HHHTHHHH
T ss_pred             HHHHHhhc
Confidence            99998875